Evidence map›Paper›PMID 22496420›Full record

ArticleMolecular biology of the cell2012

An interdomain binding site on HIV-1 Nef interacts with PACS-1 and PACS-2 on endosomes to down-regulate MHC-I.

Jimmy D Dikeakos, Laurel Thomas, Grace Kwon, Johannes Elferich, Ujwal Shinde, Gary Thomas

Abstract read
In one paragraph

Article in Molecular biology of the cell, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.

0numbers the graph read from it
0cells of the map it votes in
40citing papers in PubMed
2.0field-weighted citation impact, top 14% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

40 citing papers in PubMed, 69 citations in OpenAlex.

  1. Trial
  2. Article
  3. Review
  4. Review
  5. Article
  6. CRISPR-Cas12b enables a highly efficient attack on HIV proviral DNA in T cell cultures.Biomedicine & pharmacotherapy = Biomedecine & pharmacotherapie · 2023
    Article
  7. Article
  8. Article
  9. Article
  10. Article
  11. The Role of L-Selectin in HIV Infection.Frontiers in microbiology · 2021
    Review
  12. Article
  13. Article
  14. Article
  15. Article
  16. Article
  17. Article
  18. Review
  19. Review
  20. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 1 institution in 1 country.

Jimmy D DikeakosVollum Institute, Oregon Health and Science University, Portland, OR 97239, USA.
Laurel Thomas
Grace Kwon
Johannes Elferich
Ujwal Shinde
Gary Thomas
Oregon Health & Science University · US

Funding

Role of PACS proteins in polycystin-2 trafficking and ADPKDR01DK037274 · NIDDK · OREGON HEALTH & SCIENCE UNIVERSITY · PI THOMAS, GARY · 1986 to 2010
$3.3M
Role of PACS-1 in HIV-1 ImmunoevasionR01AI049793 · NIAID · OREGON HEALTH & SCIENCE UNIVERSITY · PI THOMAS, GARY · 2001 to 2007
$2.3M
Regulation of TRAIL Induced Apoptosis in Cancer CellsR01CA151564 · NCI · UNIVERSITY OF PITTSBURGH AT PITTSBURGH · PI THOMAS, GARY · 2011 to 2015
$1.6M
Deltavision RT Image Restoration System for Established Research Core FacilityS10RR023432 · NCRR · OREGON HEALTH & SCIENCE UNIVERSITY · PI KELLER, THOMAS J · 2007 to 2007
$365k
CIHR HFE-87760NCI NIH HHS CA151564NCI NIH HHS R01 CA151564NCRR NIH HHS S10 RR023432NCRR NIH HHS S10-RR023432NIAID NIH HHS R01 AI049793NIDDK NIH HHS DK37274NIDDK NIH HHS R01 DK037274
6 · The paper itself

Abstract

The human immunodeficiency virus type 1 (HIV-1) accessory protein Nef directs virus escape from immune surveillance by subverting host cell intracellular signaling and membrane traffic to down-regulate cell-surface major histocompatibility complex class I (MHC-I). The interaction of Nef with the sorting proteins PACS-1 and PACS-2 mediates key signaling and trafficking steps required for Nef-mediated MHC-I down-regulation. Little is known, however, about the molecular basis underlying the Nef-PACS interaction. Here we identify the sites on Nef and the PACS proteins required for their interaction and describe the consequences of disrupting this interaction for Nef action. A previously unidentified cargo subsite on PACS-1 and PACS-2 interacted with a bipartite site on Nef formed by the EEEE(65) acidic cluster on the N-terminal domain and W(113) in the core domain. Mutation of these sites prevented the interaction between Nef and the PACS proteins on Rab5 (PACS-2 and PACS-1)- or Rab7 (PACS-1)-positive endosomes as determined by bimolecular fluorescence complementation and caused a Nef mutant defective in PACS binding to localize to distorted endosomal compartments. Consequently, disruption of the Nef-PACS interaction repressed Nef-induced MHC-I down-regulation in peripheral blood mononuclear cells. Our results provide insight into the molecular basis of Nef action and suggest new strategies to combat HIV-1.

Indexed as

Down-RegulationAmino AcidsAmino Acid SequenceBinding SitesEndosomesFurinHeLa CellsHistocompatibility Antigens Class IHumansMolecular Sequence DataMutationnef Gene Products, Human Immunodeficiency VirusProtein BindingProtein Structure, SecondaryProtein Structure, TertiaryProtein TransportAmino AcidsFurinHistocompatibility Antigens Class Inef Gene Products, Human Immunodeficiency Virusnef protein, Human immunodeficiency virus 1PACS1 protein, humanPACS2 protein, humanVesicular Transport Proteins

Identifiers

PMID22496420
PMCPMC3364181
OpenAlexW2124253817

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC-SA
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.